Probiotic potential risk score
| ARGs | VFs | PGs | PPRS |
|---|---|---|---|
| 11 | 10 | 8 | 16.88 |
PPRS is classified as low-risk (≤4), medium-risk (4-6), and high-risk (≥6).
Antibiotic resistance genes
Comprehensive Antibiotic Resistance Database (CARD)
| Query ID | Begin | End | ARO name | ARO accession | CARD name | Identity | Coverage | Accession no. |
|---|---|---|---|---|---|---|---|---|
| KMEHGPNO_2 | 504854 | 505192 | ykkC | ARO:3003063 | ykkC | 99.11 | 100.00 | AL009126.1 |
| KMEHGPNO_2 | 504537 | 504854 | ykkD | ARO:3003064 | ykkD | 99.05 | 100.00 | AL009126.1 |
| KMEHGPNO_5 | 343859 | 344779 | mphK | ARO:3004541 | mphK | 97.71 | 100.00 | CP010314.1 |
| KMEHGPNO_5 | 330527 | 331966 | lmrB | ARO:3002813 | lmrB | 99.37 | 100.42 | JYFL01000006.1 |
| KMEHGPNO_5 | 280876 | 281469 | tmrB | ARO:3003059 | tmrB | 98.48 | 100.00 | AL009126.3 |
| KMEHGPNO_6 | 265661 | 268231 | Bacillus subtilis mprF | ARO:3003324 | Bsub_mprF | 99.77 | 100.00 | AL009126.3 |
| KMEHGPNO_3 | 156465 | 157634 | bmr | ARO:3003007 | bmr | 99.74 | 100.00 | M33768.1 |
| KMEHGPNO_4 | 32508 | 33362 | aadK | ARO:3002627 | aadK | 98.59 | 100.00 | AL009126.1 |
| KMEHGPNO_5 | 28920 | 30566 | vmlR | ARO:3004476 | vmlR | 98.54 | 100.18 | NC_000964.3 |
| KMEHGPNO_4 | 15410 | 16612 | blt | ARO:3003006 | blt | 99.50 | 100.00 | L32599.1 |
RGI v6.0.3 (Database: CARD Variants v4.0.2, Nov. 2023 release)
ResFinder
| Query ID | Begin | End | Resistance gene | Phenotype | Identity | Coverage | Accession no. |
|---|---|---|---|---|---|---|---|
| KMEHGPNO_4 | 32508 | 33362 | aadK | Streptomycin | 98.71 | 100.00 | M26879 |
| KMEHGPNO_5 | 343859 | 344779 | mph(K) | Spiramycin, Telithromycin | 97.83 | 100.00 | NC_000964 |
ResFinder v4.6.0 (Database: resfinder_db, Aug. 2024 release)
AMRFinderPlus
| Query ID | Begin | End | Gene symbol | Sequence name | Method | Identity | Coverage | Accession no. |
|---|---|---|---|---|---|---|---|---|
| KMEHGPNO_4 | 32511 | 33362 | aadK | aminoglycoside 6-adenylyltransferase AadK | BLASTX | 98.59 | 100.00 | WP_003229862.1 |
| KMEHGPNO_5 | 28920 | 30563 | vmlR | ABC-F type ribosomal protection protein VmlR | BLASTX | 98.54 | 100.00 | WP_003234144.1 |
| KMEHGPNO_5 | 343862 | 344779 | mphK | macrolide 2'-phosphotransferase MphK | BLASTX | 97.71 | 100.00 | WP_003246254.1 |
| KMEHGPNO_3 | 465562 | 468159 | rphC | rifamycin-inactivating phosphotransferase RphC | BLASTX | 80.83 | 100.00 | WP_087347987.1 |
AMRFinderPlus v4.0.3 (Database: Oct. 2024 release)
Virulence factors
Virulence Factor Database (VFDB)
| Query ID | qstart | qend | Gene name | e-value | VF name | VF category | Identity | Coverage | Accession no. |
|---|---|---|---|---|---|---|---|---|---|
| KMEHGPNO_3 | 357921 | 358562 | hlyIII | 0.0 | Hemolysin III | Exotoxin | 99.84 | 100.00 | NP_390062 |
| KMEHGPNO_1 | 527027 | 528208 | capB | 0.0 | Capsule | Immune modulation | 99.75 | 100.00 | NP_391471 |
| KMEHGPNO_1 | 935744 | 936529 | dhbA | 0.0 | Bacillibactin | Nutritional/Metabolic factor | 99.49 | 100.00 | NP_391080 |
| KMEHGPNO_3 | 512168 | 513931 | dep/capD | 0.0 | Capsule | Immune modulation | 99.32 | 100.00 | NP_389723 |
| KMEHGPNO_1 | 936555 | 937751 | dhbC | 0.0 | Bacillibactin | Nutritional/Metabolic factor | 99.08 | 100.00 | NP_391079 |
| KMEHGPNO_1 | 528691 | 529833 | capA | 0.0 | Capsule | Immune modulation | 99.04 | 100.00 | NP_391469 |
| KMEHGPNO_1 | 939427 | 940365 | dhbB | 0.0 | Bacillibactin | Nutritional/Metabolic factor | 99.04 | 100.00 | NP_391077 |
| KMEHGPNO_1 | 528223 | 528672 | capC | 0.0 | Capsule | Immune modulation | 98.44 | 100.00 | NP_391470 |
| KMEHGPNO_1 | 940385 | 947521 | dhbF | 0.0 | Bacillibactin | Nutritional/Metabolic factor | 98.33 | 100.00 | NP_391076 |
| KMEHGPNO_1 | 937780 | 939399 | dhbE | 0.0 | Bacillibactin | Nutritional/Metabolic factor | 96.61 | 100.00 | NP_391078 |
BLASTN v2.16.0 (Database: VFDB, Dec. 2024 release)
VirulenceFinder
| Query ID | Begin | End | Database | Virulence factor | Protein function | Identity | Coverage | Accession no. |
|---|---|---|---|---|---|---|---|---|
| No hit found | ||||||||
VirulenceFinder v2.0. 4 (Database: virulencefinder_db, Feb . 2024 release)
Pathogenic genes
PHI-base
| Query ID | qstart | qend | Gene name | e-value | Function | Identity | Coverage | Gene ID |
|---|---|---|---|---|---|---|---|---|
| KMEHGPNO_8 | 27914 | 26778 | tufA | 0.0 | elongation factor Tu | 84.96 | 95.69 | AHM69299 |
| KMEHGPNO_12 | 4266 | 5135 | pdxS | 1.10e-151 | encodes the putative pyridoxal 5'-phosphate synthase subunit PdxS | 83.79 | 98.31 | ACE61268 |
| KMEHGPNO_2 | 193246 | 192470 | CodY | 7.82e-125 | nutrient-responsive regulator | 81.08 | 100.00 | ACJ80679 |
| KMEHGPNO_1 | 673956 | 673387 | ClpP | 6.31e-99 | part of proteolytic complex | 81.05 | 97.44 | BAB94595 |
| KMEHGPNO_2 | 663563 | 663171 | spxA1 | 6.14e-70 | redox-responsive transcription factor | 83.97 | 100.00 | AAF21893 |
| KMEHGPNO_2 | 663563 | 663171 | spx | 3.66e-68 | essential gene which is a thiol/oxidative stress sensor | 80.15 | 100.00 | BAB57159 |
| KMEHGPNO_9 | 20762 | 21004 | SpoVG | 7.51e-39 | RNA-binding protein | 81.48 | 79.41 | AAT02994 |
| KMEHGPNO_5 | 76978 | 76781 | CspA | 1.88e-31 | cold shock protein | 90.91 | 100.00 | CAA62903 |
| KMEHGPNO_3 | 346692 | 346498 | CspD | 1.34e-27 | cold shock protein | 80.00 | 98.48 | CAC99957 |
| KMEHGPNO_3 | 346692 | 346495 | CspB | 2.78e-27 | cold shock protein | 80.30 | 100.00 | CAD00094 |
BLASTX v2.16.0 (Database: PHI base v4.16, May. 2024 release)
Plasmid
PlasmidFinder
| Query ID | Begin | End | Plasmid | Query / Template | Identity | Accession no. |
|---|---|---|---|---|---|---|
| No hit found | ||||||
PlasmidFinder v 2.1.6 (Database: plasmidfinder_db v 2.2.0 , Nov. 2024 release)
PlasmidHunter
| Query ID | Prediction | Chromosome | Plasmid |
|---|---|---|---|
| KMEHGPNO_1 | 0.0 | 1.0 | 0.0 |
| KMEHGPNO_2 | 0.0 | 1.0 | 0.0 |
| KMEHGPNO_3 | 0.0 | 1.0 | 0.0 |
| KMEHGPNO_4 | 0.0 | 1.0 | 0.0 |
| KMEHGPNO_5 | 0.0 | 1.0 | 0.0 |
| KMEHGPNO_6 | 0.0 | 1.0 | 0.0 |
| KMEHGPNO_7 | 0.0 | 1.0 | 0.0 |
| KMEHGPNO_8 | 0.0 | 1.0 | 0.0 |
| KMEHGPNO_9 | 0.0 | 1.0 | 0.0 |
| KMEHGPNO_10 | 0.0 | 1.0 | 0.0 |
| KMEHGPNO_11 | 0.0 | 1.0 | 0.0 |
| KMEHGPNO_12 | 0.0 | 1.0 | 0.0 |
| KMEHGPNO_13 | 0.0 | 1.0 | 0.0 |
| KMEHGPNO_14 | 0.0 | 1.0 | 0.0 |
| KMEHGPNO_16 | 0.0 | 1.0 | 0.0 |
| KMEHGPNO_18 | 0.0 | 1.0 | 0.0 |
PlasmidHunter v 1.4.5 (Database: May. 2024 release)
Prophage
Phigaro
| Query ID | Begin | End | Transposable | Taxonomy | pVOGs |
|---|---|---|---|---|---|
| KMEHGPNO_2 | 534710 | 561077 | False | Myoviridae | VOG0753, VOG4705, VOG4612, VOG4862, VOG4691, VOG4550, VOG3894, VOG4885, VOG4865, VOG6163, VOG3892, VOG3891, VOG3890, VOG0749, VOG4685, VOG4773, VOG10227, VOG0796, VOG5447, VOG4861, VOG0189, VOG3490, VOG9667 |
Phigaro v2.4.0 (Database: Jan. 2024 release)